Plant Circular RNA Database

Detail information of AT5G05170_circ_g.13

			
						 General Information
					
						CircRNA Name
						AT5G05170_circ_g.13
					
						ID in PlantcircBase
						ath_circ_036533
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 1533068-1534894  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT5G05170						
					
						Parent gene annotation
						
							Cellulose synthase A catalytic subunit 3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G05170_circ_g.9 AT5G05170_circ_g.10 AT5G05170_circ_g.11 AT5G05170_circ_g.12 AT5G05170_circ_g.14 AT5G05170_circ_g.15 AT5G05170_circ_g.16 AT5G05170_circ_g.17 AT5G05170_circ_g.18 AT5G05170_circ_g.19 AT5G05170_circ_g.20 						
					
						Support reads
						81
					
						Tissues
						whole_plant
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT5G05170.1:6

General Information
CircRNA Name	AT5G05170_circ_g.13
ID in PlantcircBase	ath_circ_036533
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 1533068-1534894 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT5G05170
Parent gene annotation	Cellulose synthase A catalytic subunit 3
Parent gene strand	-
Alternative splicing	AT5G05170_circ_g.9 AT5G05170_circ_g.10 AT5G05170_circ_g.11 AT5G05170_circ_g.12 AT5G05170_circ_g.14 AT5G05170_circ_g.15 AT5G05170_circ_g.16 AT5G05170_circ_g.17 AT5G05170_circ_g.18 AT5G05170_circ_g.19 AT5G05170_circ_g.20
Support reads	81
Tissues	whole_plant
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT5G05170.1:6

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							AAATATCACAAGCCACAAAACGATCTCCATCAACAGTCTTGCCAACATTGTCACTACAGATCTG
GCAAGTCTGCGGAACAATGTTCTTCATCGGCTTTCCcttcatagctctacgatctttgacaaat
gatgtctgaactttatccttcaagtaatctattttcgcagcaaagtaccattctggtgcacgag
gctctatg

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							CTTCATAGCTCTACGATCTTTGACAAATGATGTCTGAACTTTATCCTTCAAGTAATCTATTTTC
GCAGCAAAGTACCATTCTGGTGCACGAGGCTCTATGCTATATTTCTTGCAAAATGGTACCCATT
TACGAGCAAACTCTGATGTTTCTGCAAGTGATTCAAATGATAACATAGCAGCACCATCATCAGA
AACATAACAGGACACCTTGTCAACTGGGTAGTCAACAGCCAGAATAGAGAGCACTGTGTTGGCT
GTCACAAGGGGTGGCTCCTTCAAGGGGTCAACAGTACTCACGAAAATGTCAACAGCAGCTAACT
GTGATGGCTCACCTTCACGATCATATCTGTCCCAAAAATTGACCATGATCAAATTAAAATGGGA
AACAGTATAGGCAAACAATCCTTTGAGTAATTGCTTCAGAAGAATGGGGAAATAGAACTTACCT
TAAAGCAAGCCTGTCGAGGTAGGTTTCACGGTTCACAGGAAACCACTTGGGAAACTGATCCAAA
ATCCAGGATAAGGCAAACCAGATCTCACATATCACAGAGACCAGCCATAGAGCAAAGGCATTTG
GCACTGGGTTTGTTATACGGTAATGCAAGAAGAGACAAAGGATAACAAGCCGCAGCATAATAAC
CATTCTGTAAGGATTGATCCGTGATGAAGGAATTGAAACTTTCCTTGACAGAGGCTGCCTCGCT
TCGTCATTCCTGTACAATAAATAAAGAATTGGAAAATGAGTATCAGGACATTGCTTAATAGGAA
AAACGCTCGGTACACCACGACAGAACAAACAAGATTACAAAACAAGAACTCACAGCAGAGCCTC
ATCTGCTAGGATATCTGTGCTGGCATCAATATCTACTCCACCTCTTTCAGAAGCAGCCTGCGTG
CTGACAGGACCAGTATTCTTCTCTTGCTTCATTTTCCAGCCATCAACTCTCTCCTTCCAAGCTA
CATTCCCGAGTCCAACAGGATCCACAATCCTTCTATTTGCTGCAGCGTGAATGACAACAACAGA
TTTTATTGTTTAGAGTTTTGACATAAAAGAGAAGCCTAGGTACAAATATATGTGTTGGCGAGAG
AGTTAGAAATAAAGGATATTTACGTGATTGATTGACATCTGATGAATAGGGAAGGCGCTTTCCC
CCAGCGATAGTAGAAGATACAGAGAGGCGTTCAGGTGAGGCAGCAGAAAACTCTCCTGAAGTCT
GTAAATAAGCAAATGACAAAATCAGATTCCAAAACTAAATTGCGTGAGGATGCGAATGCTTAAG
AGGGAAGAATGAACAGCAATGCCTTACATCTTGTCTGCTCGTGAGACGAGGAAGATGATTGTGA
GAGACCTCTTTATCATACTGGGGTTCCCCCATTTCCTCTCCCTTCCCACGAGTAAGATGCCAAC
CAAGCATCCGCTCTGAAATTTTCTCCTTCTGAGGGTAGTTGAACTCAACAGTACCTTCATCAGC
TAAGCCATCCTCGTCTTTATCACCAGGAATAGCAGGACTACCTAGAATCAGAAATTAGCAAATT
GCTATAAATACCAATCTGATCCAAAATTCAAAACATACTGATAAACTATCGATGAACAATGAAG
ACAGTATACTTCAGAAGGATCAAAAGAGAACCTTTGAGCCTCTTGTATCTGGTTTTGCACTGAG
GACAAGATTGATTCCCATCTTTCCTCTCATACTCGTAGCAAGGCCGACAAACTGGGAATGAACA
AATATCACAAGCCACAAAACGATCTCCATCAACAGTCTTGCCAACATTGTCACTACAGATCTGG
CAAGTCTGCGGAACAATGTTCTTCATCGGCTTTCC
						
					

			
		

Sequences
Splice junction sequence	AAATATCACAAGCCACAAAACGATCTCCATCAACAGTCTTGCCAACATTGTCACTACAGATCTG GCAAGTCTGCGGAACAATGTTCTTCATCGGCTTTCCcttcatagctctacgatctttgacaaat gatgtctgaactttatccttcaagtaatctattttcgcagcaaagtaccattctggtgcacgag gctctatg
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	CTTCATAGCTCTACGATCTTTGACAAATGATGTCTGAACTTTATCCTTCAAGTAATCTATTTTC GCAGCAAAGTACCATTCTGGTGCACGAGGCTCTATGCTATATTTCTTGCAAAATGGTACCCATT TACGAGCAAACTCTGATGTTTCTGCAAGTGATTCAAATGATAACATAGCAGCACCATCATCAGA AACATAACAGGACACCTTGTCAACTGGGTAGTCAACAGCCAGAATAGAGAGCACTGTGTTGGCT GTCACAAGGGGTGGCTCCTTCAAGGGGTCAACAGTACTCACGAAAATGTCAACAGCAGCTAACT GTGATGGCTCACCTTCACGATCATATCTGTCCCAAAAATTGACCATGATCAAATTAAAATGGGA AACAGTATAGGCAAACAATCCTTTGAGTAATTGCTTCAGAAGAATGGGGAAATAGAACTTACCT TAAAGCAAGCCTGTCGAGGTAGGTTTCACGGTTCACAGGAAACCACTTGGGAAACTGATCCAAA ATCCAGGATAAGGCAAACCAGATCTCACATATCACAGAGACCAGCCATAGAGCAAAGGCATTTG GCACTGGGTTTGTTATACGGTAATGCAAGAAGAGACAAAGGATAACAAGCCGCAGCATAATAAC CATTCTGTAAGGATTGATCCGTGATGAAGGAATTGAAACTTTCCTTGACAGAGGCTGCCTCGCT TCGTCATTCCTGTACAATAAATAAAGAATTGGAAAATGAGTATCAGGACATTGCTTAATAGGAA AAACGCTCGGTACACCACGACAGAACAAACAAGATTACAAAACAAGAACTCACAGCAGAGCCTC ATCTGCTAGGATATCTGTGCTGGCATCAATATCTACTCCACCTCTTTCAGAAGCAGCCTGCGTG CTGACAGGACCAGTATTCTTCTCTTGCTTCATTTTCCAGCCATCAACTCTCTCCTTCCAAGCTA CATTCCCGAGTCCAACAGGATCCACAATCCTTCTATTTGCTGCAGCGTGAATGACAACAACAGA TTTTATTGTTTAGAGTTTTGACATAAAAGAGAAGCCTAGGTACAAATATATGTGTTGGCGAGAG AGTTAGAAATAAAGGATATTTACGTGATTGATTGACATCTGATGAATAGGGAAGGCGCTTTCCC CCAGCGATAGTAGAAGATACAGAGAGGCGTTCAGGTGAGGCAGCAGAAAACTCTCCTGAAGTCT GTAAATAAGCAAATGACAAAATCAGATTCCAAAACTAAATTGCGTGAGGATGCGAATGCTTAAG AGGGAAGAATGAACAGCAATGCCTTACATCTTGTCTGCTCGTGAGACGAGGAAGATGATTGTGA GAGACCTCTTTATCATACTGGGGTTCCCCCATTTCCTCTCCCTTCCCACGAGTAAGATGCCAAC CAAGCATCCGCTCTGAAATTTTCTCCTTCTGAGGGTAGTTGAACTCAACAGTACCTTCATCAGC TAAGCCATCCTCGTCTTTATCACCAGGAATAGCAGGACTACCTAGAATCAGAAATTAGCAAATT GCTATAAATACCAATCTGATCCAAAATTCAAAACATACTGATAAACTATCGATGAACAATGAAG ACAGTATACTTCAGAAGGATCAAAAGAGAACCTTTGAGCCTCTTGTATCTGGTTTTGCACTGAG GACAAGATTGATTCCCATCTTTCCTCTCATACTCGTAGCAAGGCCGACAAACTGGGAATGAACA AATATCACAAGCCACAAAACGATCTCCATCAACAGTCTTGCCAACATTGTCACTACAGATCTGG CAAGTCTGCGGAACAATGTTCTTCATCGGCTTTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.288245626

Conservation Information
Conserved circRNAs	NA
PMCS	0.288245626

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							1534886-1533070(-)
						
					

						Potential amino acid sequence
						
							MKNIVPQTCQICSDNVGKTVDGDRFVACDICSFPVCRPCYEYERKDGNQSCPQCKTRYKRLKGS
PAIPGDKDEDGLADEGTVEFNYPQKEKISERMLGWHLTRGKGEEMGEPQYDKEVSHNHLPRLTS
RQDTSGEFSAASPERLSVSSTIAGGKRLPYSSDVNQSPNRRIVDPVGLGNVAWKERVDGWKMKQ
EKNTGPVSTQAASERGGVDIDASTDILADEALLNDEARQPLSRKVSIPSSRINPYRMVIMLRLV
ILCLFLHYRITNPVPNAFALWLVSVICEIWFALSWILDQFPKWFPVNRETYLDRLALRYDREGE
PSQLAAVDIFVSTVDPLKEPPLVTANTVLSILAVDYPVDKVSCYVSDDGAAMLSFESLAETSEF
ARKWVPFCKKYSIEPRAPEWYFAAKIDYLKDKVQTSFVKDRRAMKGKPMKNIVPQTCQICSDNV
GKTVDGDRFVACDICSFPVCRPCYEYERKDGNQSCPQCKTRYKRLKGSPAIPGDKDEDGLADEG
TVEFNYPQKEKISERMLGWHLTRGKGEEMGEPQYDKEVSHNHLPRLTSRQDTSGEFSAASPERL
SVSSTIAGGKRLPYSSDVNQSPNRRIVDPVGLGNVAWKERVDGWKMKQEKNTGPVSTQAASERG
GVDIDASTDILADEALLNDEARQPLSRKVSIPSSRINPYRMVIMLRLVILCLFLHYRITNPVPN
AFALWLVSVICEIWFALSWILDQFPKWFPVNRETYLDRLALRYDREGEPSQLAAVDIFVSTVDP
LKEPPLVTANTVLSILAVDYPVDKVSCYVSDDGAAMLSFESLAETSEFARKWVPFCKKYSIEPR
APEWYFAAKIDYLKDKVQTSFVKDRRAMKGKPMKNIVPQTCQICSDNVGKTVDGDRFVACDICS
FPVCRPCYEYERKDGNQSCPQCKTRYKRLKGSPAIPGDKDEDGLADEGTVEFNYPQKEKISERM
LGWHLTRGKGEEMGEPQYDKEVSHNHLPRLTSRQDTSGEFSAASPERLSVSSTIAGGKRLPYSS
DVNQSPNRRIVDPVGLGNVAWKERVDGWKMKQEKNTGPVSTQAASERGGVDIDASTDILADEAL
LNDEARQPLSRKVSIPSSRINPYRMVIMLRLVILCLFLHYRITNPVPNAFALWLVSVICEIWFA
LSWILDQFPKWFPVNRETYLDRLALRYDREGEPSQLAAVDIFVSTVDPLKEPPLVTANTVLSIL
AVDYPVDKVSCYVSDDGAAMLSFESLAETSEFARKWVPFCKKYSIEPRAPEWYFAAKIDYLKDK
VQTSFVKDRRAMKGKPMKNIVPQTCQICSDNVGKTVDGDRFVACDICSFPVCRPCYEYERKDGN
QSCPQCKTRYKRLKGSPAIPGDKDEDGLADEGTVEFNYPQKEKISERMLGWHLTRGKGEEMGEP
QYDKEVSHNHLPRLTSRQDTSGEFSAASPERLSVSSTIAGGKRLPYSSDVNQSPNRRIVDPVGL
GNVAWKERVDGWKMKQEKNTGPVSTQAASERGGVDIDASTDILADEALLNDEARQPLSRKVSIP
SSRINPYRMVIMLRLVILCLFLHYRITNPVPNAFALWLVSVICEIWFALSWILDQFPKWFPVNR
ETYLDRLALRYDREGEPSQLAAVDIFVSTVDPLKEPPLVTANTVLSILAVDYPVDKVSCYVSDD
GAAMLSFESLAETSEFARKWVPFCKKYSIEPRAPEWYFAAKIDYLKDKVQTSFVKDRRAMK(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	1534886-1533070(-)
Potential amino acid sequence	MKNIVPQTCQICSDNVGKTVDGDRFVACDICSFPVCRPCYEYERKDGNQSCPQCKTRYKRLKGS PAIPGDKDEDGLADEGTVEFNYPQKEKISERMLGWHLTRGKGEEMGEPQYDKEVSHNHLPRLTS RQDTSGEFSAASPERLSVSSTIAGGKRLPYSSDVNQSPNRRIVDPVGLGNVAWKERVDGWKMKQ EKNTGPVSTQAASERGGVDIDASTDILADEALLNDEARQPLSRKVSIPSSRINPYRMVIMLRLV ILCLFLHYRITNPVPNAFALWLVSVICEIWFALSWILDQFPKWFPVNRETYLDRLALRYDREGE PSQLAAVDIFVSTVDPLKEPPLVTANTVLSILAVDYPVDKVSCYVSDDGAAMLSFESLAETSEF ARKWVPFCKKYSIEPRAPEWYFAAKIDYLKDKVQTSFVKDRRAMKGKPMKNIVPQTCQICSDNV GKTVDGDRFVACDICSFPVCRPCYEYERKDGNQSCPQCKTRYKRLKGSPAIPGDKDEDGLADEG TVEFNYPQKEKISERMLGWHLTRGKGEEMGEPQYDKEVSHNHLPRLTSRQDTSGEFSAASPERL SVSSTIAGGKRLPYSSDVNQSPNRRIVDPVGLGNVAWKERVDGWKMKQEKNTGPVSTQAASERG GVDIDASTDILADEALLNDEARQPLSRKVSIPSSRINPYRMVIMLRLVILCLFLHYRITNPVPN AFALWLVSVICEIWFALSWILDQFPKWFPVNRETYLDRLALRYDREGEPSQLAAVDIFVSTVDP LKEPPLVTANTVLSILAVDYPVDKVSCYVSDDGAAMLSFESLAETSEFARKWVPFCKKYSIEPR APEWYFAAKIDYLKDKVQTSFVKDRRAMKGKPMKNIVPQTCQICSDNVGKTVDGDRFVACDICS FPVCRPCYEYERKDGNQSCPQCKTRYKRLKGSPAIPGDKDEDGLADEGTVEFNYPQKEKISERM LGWHLTRGKGEEMGEPQYDKEVSHNHLPRLTSRQDTSGEFSAASPERLSVSSTIAGGKRLPYSS DVNQSPNRRIVDPVGLGNVAWKERVDGWKMKQEKNTGPVSTQAASERGGVDIDASTDILADEAL LNDEARQPLSRKVSIPSSRINPYRMVIMLRLVILCLFLHYRITNPVPNAFALWLVSVICEIWFA LSWILDQFPKWFPVNRETYLDRLALRYDREGEPSQLAAVDIFVSTVDPLKEPPLVTANTVLSIL AVDYPVDKVSCYVSDDGAAMLSFESLAETSEFARKWVPFCKKYSIEPRAPEWYFAAKIDYLKDK VQTSFVKDRRAMKGKPMKNIVPQTCQICSDNVGKTVDGDRFVACDICSFPVCRPCYEYERKDGN QSCPQCKTRYKRLKGSPAIPGDKDEDGLADEGTVEFNYPQKEKISERMLGWHLTRGKGEEMGEP QYDKEVSHNHLPRLTSRQDTSGEFSAASPERLSVSSTIAGGKRLPYSSDVNQSPNRRIVDPVGL GNVAWKERVDGWKMKQEKNTGPVSTQAASERGGVDIDASTDILADEALLNDEARQPLSRKVSIP SSRINPYRMVIMLRLVILCLFLHYRITNPVPNAFALWLVSVICEIWFALSWILDQFPKWFPVNR ETYLDRLALRYDREGEPSQLAAVDIFVSTVDPLKEPPLVTANTVLSILAVDYPVDKVSCYVSDD GAAMLSFESLAETSEFARKWVPFCKKYSIEPRAPEWYFAAKIDYLKDKVQTSFVKDRRAMK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT5G05170_circ_g.13

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